README – Recombining Split FASTQ Files

(These fastqs are associated with figure 1b)

These FASTQ files were split into ~2 GB chunks due to Dataverse upload limits.
To reconstruct the original files after downloading all parts:

This is an example for the female rat 2 samples. Please apply the same steps
to the other samples to regenerate the full FASTQs.

Make sure all .part.* files for each FASTQ are in the same directory, then run:

# For I1
cat Ctl_CKDL220023863-1A_HJ2W5BBXX_S1_L004_I1_001.part.* > RA-6wk-F_S1_L004_I1_001.fastq.gz

# For I2
cat Ctl_CKDL220023863-1A_HJ2W5BBXX_S1_L004_I2_001.part.* > 	Ctl_CKDL220023863-1A_HJ2W5BBXX_S1_L004_I2_001.fastq.gz

# For R1
cat Ctl_CKDL220023863-1A_HJ2W5BBXX_S1_L004_R1_001.part.* > Ctl_CKDL220023863-1A_HJ2W5BBXX_S1_L004_R1_001.fastq.gz

# For R2
cat 	
Ctl_CKDL220023863-1A_HJ2W5BBXX_S1_L004_R2_001.part.* > RCtl_CKDL220023863-1A_HJ2W5BBXX_S1_L004_R2_001.fastq.gz

After running these commands, you’ll have the original FASTQ.gz files back.
es back.

#SAMPLE PREFIX IDENTIFICATIONS

	
NFU_M_EC_CKDL220031279-1A_HKMHNDSX5 = First male rat sample - SD_M1
p23047 = Second male rat sample- SD_M2
WT_CKDL210019813-1a-SI_GA_C3_HGKYFBBXX = First female rat sample - SD_F1
Ctl_CKDL220023863-1A_HJ2W5BBXX = Second female rat sample - SD_F2
